Re: [ccp4bb] [EXTERNAL] Re: [ccp4bb] Better Beamline suggestion!

2019-08-21 Thread CHAVAS Leonard
Dear Chandra SLS and ourselves (SOLEIL) are dealing rather often with large unit cells and fancy crystal orientations. No great secret, and things have already been mentioned: combining three-axis goniometry, large area Pixel detector, low background, small wedges and/or helical scans,

[ccp4bb] 3 years research assistant position for masters or junior postdocs

2019-08-21 Thread Benini Stefano
Dear All, We have no internal candidates for the following position suitable either for a researcher with a MSc or a junior postdoc with experience in protein purification and possibly protein crystallization and crystallography. The project: Siderophore mediated iron uptake in Erwinia

Re: [ccp4bb] [EXTERNAL] Re: [ccp4bb] Better Beamline suggestion!

2019-08-21 Thread Frank Von Delft
We also described how to bend the loops in this article: http://doi.org/gcb8j3 Figure 4 specifically. On 21/08/2019 18:21, Edwin Pozharski wrote: In the absence of such you can resort to carefully bending the loop or bending the pin (Jim Holton made a nifty device for bending the pin) while

[ccp4bb] Postdoc positions in Luca Lab at Moffitt Cancer Center

2019-08-21 Thread Vince Luca
Dear all, Our laboratory (www.thelucalab.org) is recruiting postdoctoral researchers interested in (1) studying the structural mechanisms of Notch receptor activation and (2) designing biologics to control Notch activity on specific tissue types. We use a multidisciplinary approach that

Re: [ccp4bb] [EXTERNAL] Re: [ccp4bb] Better Beamline suggestion!

2019-08-21 Thread Edwin Pozharski
> > > In the absence of such you can resort to carefully bending the loop or > bending the pin (Jim Holton made a nifty device for bending the pin) while > keeping the xtal bathed in the cold stream. > > I would also mention these

Re: [ccp4bb] need someone officially settle a pdb dispute for a publication

2019-08-21 Thread Jürgen Bosch
I guess I should just reply with “B.” since you replied with A. :-) More seriously, Both A & B will need to have real hard proof of their claims as this is a real mess in which they got themselves into. It seems as A despite not been hired by B succeeded in getting another position, which is

Re: [ccp4bb] Problem in .mtz creation

2019-08-21 Thread Vijayakumar Rajendran
On Wed, 21 Aug 2019 at 19:35, Vijayakumar Rajendran < vijayakumar.thenilgi...@gmail.com> wrote: > Dear Eleanor, > Thanks a lot. Its working great.. > > On Wed, 21 Aug 2019 at 17:12, Eleanor Dodson < > 176a9d5ebad7-dmarc-requ...@jiscmail.ac.uk> wrote: > >> Here is the reason! >> >> Col Sort

[ccp4bb] 回复: [ccp4bb] not solely pdb issue: need someone to officially settle the pdb dispute

2019-08-21 Thread Flemming Goery
I find the message in my original e-mail has changed, perhaps by hackers, and here I resend it as following: Dear all: A has sought a job in the lab of B. B invited A for a interview with a PPT oral presentation, as requested A has sent the PPT on the structural biology research of XXX to B by

[ccp4bb] AW: [EXTERNAL] Re: [ccp4bb] not solely pdb issue: need someone to officially settle the pdb dispute

2019-08-21 Thread Herman . Schreuder
Being denied a job because someone else published your research may make the dance also somewhat less happy… Herman Von: CCP4 bulletin board [mailto:CCP4BB@JISCMAIL.AC.UK] Im Auftrag von Mark J van Raaij Gesendet: Mittwoch, 21. August 2019 11:48 An: CCP4BB@JISCMAIL.AC.UK Betreff: [EXTERNAL]

Re: [ccp4bb] not solely pdb issue: need someone to officially settle the pdb dispute

2019-08-21 Thread Mark J van Raaij
Another problem is that the structure was apparently originally not cited properly, and now still cited as work from the lab of B, rather than as work of A... Mark J van Raaij Dpto de Estructura de Macromoleculas Centro Nacional de Biotecnologia - CSIC calle Darwin 3 E-28049 Madrid, Spain tel.

Re: [ccp4bb] not solely pdb issue: need someone to officially settle the pdb dispute

2019-08-21 Thread Mark J van Raaij
From the story, it seems to be a bit more complicated than that, using not only a deposited public-domain PDB, but also other data transferred confidentially (undeposited pdb and oral and written reports). This does seem unethical to me. I have to admit we only have one side of the story

Re: [ccp4bb] not solely pdb issue: need someone to officially settle the pdb dispute

2019-08-21 Thread Anastassis Perrakis
If the structure has been deposited in the PDB and thus is public ally available, B (or F, G, Φ, Ξ, Δ, Α or whoever else) has every right to use it in a publication. “A” should follow the advice of Frank and do a happy dance for the usefulness of the work, or if not feeling like dancing she/he

Re: [ccp4bb] not solely pdb issue: need someone to officially settle the pdb dispute

2019-08-21 Thread Frank Von Delft
If A had deposited it to the PDB immediately, he'd have had been able to claim the kudos and help lots of scientists besides B. How is it that we structural biologists still are so precious about our coordinates? Or more to the point, that the supervisors still don't teach their students that

[ccp4bb] not solely pdb issue: need someone to officially settle the pdb dispute

2019-08-21 Thread Flemming Goery
Dear all: A has sought a job in the lab of B. B invited A for a interview with a PPT oral presentation, as requested B has sent the PPT on the structural biology research of XXX to B by e-mail, and presented in front of A and his postdoctoral researcher. After interview, B requested all

Re: [ccp4bb] AW: need someone officially settle a pdb dispute for a publication

2019-08-21 Thread Frank Von Delft
Structural genomics efforts have been putting PDBs in the public domain for almost 2 decades - precisely so they'd be used. That's the whole point of the PDB, and open repositories: set the data free, so it can make science happen. "A" should be delighted that their work have actually been

Re: [ccp4bb] need someone officially settle a pdb dispute for a publication

2019-08-21 Thread Anastassis Perrakis
Something is unclear to me in the original question. What does “has used his pdb for a publication” mean? Somebody used an entry already in the PDB? Somebody used a “.pdb” coordinates file for publication (without “.mtz”)? What was and is the relationship between A and B? In any case, assuming

Re: [ccp4bb] need someone officially settle a pdb dispute for a publication

2019-08-21 Thread Coker, Alun
Dear Flemming, This would be an intellectual property dispute. A is cleaning that B has used his IP without agreement. Most universities (and I assume other organisations) have IP policies that protect staff from having there IP stolen; the IP nominally belongs to the institution so the theft

Re: [ccp4bb] Problem in .mtz creation

2019-08-21 Thread Paul Emsley
On 20/08/2019 14:31, Vijayakumar Rajendran wrote: I have a problem in viewing electron density map by opening .mtz file in coot. Actually I have a PDB cordinates of water molecules of my protein using Hollow program. I generated the .mtz file using SFall program in CCP4i by providing the cryst

Re: [ccp4bb] need someone officially settle a pdb dispute for a publication

2019-08-21 Thread Mark J van Raaij
Dear Flemming, As I understand it (I may be wrong), the final responsible institutions are those where the authors work. But as you say, they sometimes don't even reply - or they just may be very slow because they want to be really sure before committing to any answer. But the journal has a

[ccp4bb] AW: need someone officially settle a pdb dispute for a publication

2019-08-21 Thread Herman . Schreuder
Dear Flemming, As Jürgen said, what happened? Did A deposit the coordinate file in the pdb, but did not publish and did B take this coordinates and make a publication? Or did B ask A for the coordinates to have a look at and then made a publication without agreement of A? Did B hack the

Re: [ccp4bb] Problem in real space - please sign & invite other scientists to sign this letter

2019-08-21 Thread David Briggs
Dear Daniel, I could not disagree with you more. As scientists it falls to us to support our colleagues (from whatever other discipline) when they provide evidence that has profound ramifications for humanity. Would we hesitate to stand by colleagues who (for example) demonstrate the efficacy